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https://www.readbyqxmd.com/read/29784908/integration-of-multi-omics-data-and-deep-phenotyping-enables-prediction-of-cytokine-responses
#1
Olivier B Bakker, Raul Aguirre-Gamboa, Serena Sanna, Marije Oosting, Sanne P Smeekens, Martin Jaeger, Maria Zorro, Urmo Võsa, Sebo Withoff, Romana T Netea-Maier, Hans J P M Koenen, Irma Joosten, Ramnik J Xavier, Lude Franke, Leo A B Joosten, Vinod Kumar, Cisca Wijmenga, Mihai G Netea, Yang Li
The immune response to pathogens varies substantially among people. Whereas both genetic and nongenetic factors contribute to interperson variation, their relative contributions and potential predictive power have remained largely unknown. By systematically correlating host factors in 534 healthy volunteers, including baseline immunological parameters and molecular profiles (genome, metabolome and gut microbiome), with cytokine production after stimulation with 20 pathogens, we identified distinct patterns of co-regulation...
May 21, 2018: Nature Immunology
https://www.readbyqxmd.com/read/29784310/effects-of-fermented-milk-treatment-on-microbial-population-and-metabolomic-outcomes-in-a-three-stage-semi-continuous-culture-system
#2
Kwang Hyun Cha, Eun Ha Lee, Hyo Shin Yoon, Jae Ho Lee, Joo Yun Kim, Kyungsu Kang, Jin-Soo Park, Jong Beom Jin, GwangPyo Ko, Cheol-Ho Pan
We investigated the impact of a fermented milk product on gut microbiota and their metabolism in 3 different conditions of the colon with a systemic viewpoint. An in vitro semi-continuous anaerobic cultivation was used to assess the colon compartment-specific influence of fermented milk, followed by a multiomics approach combining 16S rDNA amplicon sequencing and nuclear magnetic resonance (NMR) spectroscopy. The microbiome profiling and metabolomic features were significantly different across three colon compartments and after fermented milk treatment...
October 15, 2018: Food Chemistry
https://www.readbyqxmd.com/read/29773876/early-salmonella-typhimurium-infection-in-pigs-disrupts-microbiome-composition-and-functionality-principally-at-the-ileum-mucosa
#3
Héctor Argüello, Jordi Estellé, Sara Zaldívar-López, Ángeles Jiménez-Marín, Ana Carvajal, Mª Asunción López-Bascón, Fiona Crispie, Orla O'Sullivan, Paul D Cotter, Feliciano Priego-Capote, Luis Morera, Juan J Garrido
Salmonella is a major foodborne pathogen which successfully infects animal species for human consumption such as swine. The pathogen has a battery of virulence factors which it uses to colonise and persist within the host. The host microbiota may play a role in resistance to, and may also be indirectly responsible from some of the consequences of, Salmonella infection. To investigate this, we used 16S rRNA metagenomic sequencing to determine the changes in the gut microbiota of pigs in response to infection by Salmonella Typhimurium at three locations: ileum mucosa, ileum content and faeces...
May 17, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29769268/pbdes-altered-gut-microbiome-and-bile-acid-homeostasis-in-male-c57bl-6-mice
#4
Cindy Yanfei Li, Joseph L Dempsey, Dongfang Wang, SooWan Lee, Kris M Weigel, Qiang Fei, Deepak Kumar Bhatt, Bhagwat Prasad, Daniel Raftery, Haiwei Gu, Julia Yue Cui
Polybrominated diphenyl ethers (PBDEs) are persistent environmental contaminants with well-characterized toxicities in host organs. Gut microbiome is increasingly recognized as an important regulator of xenobiotic biotransformation; however, little is known about its interactions with PBDEs. Primary bile acids (BAs) are metabolized by the gut microbiome into more lipophilic secondary BAs that may be absorbed and interact with certain host receptors. The goal of this study was to test our hypothesis that PBDEs cause dysbiosis and aberrant regulation of BA homeostasis...
May 16, 2018: Drug Metabolism and Disposition: the Biological Fate of Chemicals
https://www.readbyqxmd.com/read/29767564/interorgan-metabolic-crosstalk-in-human-insulin-resistance
#5
Sofiya Gancheva, Tomas Jelenik, Elisa Álvarez-Hernández, Michael Roden
Excessive energy intake and reduced energy expenditure drive the development of insulin resistance and metabolic diseases such as obesity and type 2 diabetes mellitus. Metabolic signals derived from dietary intake or secreted from adipose tissue, gut, and liver contribute to energy homeostasis. Recent metabolomic studies identified novel metabolites and enlarged our knowledge on classic metabolites. This review summarizes the evidence of their roles as mediators of interorgan crosstalk and regulators of insulin sensitivity and energy metabolism...
July 1, 2018: Physiological Reviews
https://www.readbyqxmd.com/read/29751077/procyanidin-b2-protects-against-d-galactose-induced-mimetic-aging-in-mice-metabolites-and-microbiome-analysis
#6
Ying Xiao, Jialin Dong, Zhiting Yin, Qiguo Wu, Yiming Zhou, Xiaoli Zhou
To elucidate the possible mechanisms for the preventive effect of procyanidin B2 on aging, a combined analysis of metabolic profile and gut microbiome was carried out in the present study. The mimetic aged mice induced by d-galactose injection (500 mg/kg, sc daily), and the preventive group was fed with the diet plus 0.2% procyanidin B2. After 7 weeks of treatment, the spatial memory was assayed using the Morris water maze test. Procyanidin B2 significantly ameliorated the impaired memory and antioxidant abilities induced by d-galactose...
May 8, 2018: Food and Chemical Toxicology
https://www.readbyqxmd.com/read/29750272/gut-microbial-diversity-is-associated-with-lower-arterial-stiffness-in-women
#7
Cristina Menni, Chihung Lin, Marina Cecelja, Massimo Mangino, Maria Luisa Matey-Hernandez, Louise Keehn, Robert P Mohney, Claire J Steves, Tim D Spector, Chang-Fu Kuo, Phil Chowienczyk, Ana M Valdes
Aims: The gut microbiome influences metabolic syndrome (MetS) and inflammation and is therapeutically modifiable. Arterial stiffness is poorly correlated with most traditional risk factors. Our aim was to examine whether gut microbial composition is associated with arterial stiffness. Methods and results: We assessed the correlation between carotid-femoral pulse wave velocity (PWV), a measure of arterial stiffness, and gut microbiome composition in 617 middle-aged women from the TwinsUK cohort with concurrent serum metabolomics data...
May 9, 2018: European Heart Journal
https://www.readbyqxmd.com/read/29749635/microbial-and-metabolic-multi-omic-correlations-in-systemic-sclerosis-patients
#8
Chiara Bellocchi, Álvaro Fernández-Ochoa, Gaia Montanelli, Barbara Vigone, Alessandro Santaniello, Christian Milani, Rosa Quirantes-Piné, Isabel Borrás-Linares, Marco Ventura, Antonio Segura-Carrettero, Marta Eugenia Alarcón-Riquelme, Lorenzo Beretta
Intestinal microbiota has been associated with systemic autoimmune diseases, yet the functional consequences of these associations are elusive. We characterized the fecal microbiota (16S rRNA gene amplification and sequencing) and the plasma metabolome (high-performance liquid chromatography coupled to mass spectrometry) in 59 patients with systemic sclerosis (SSc) and 28 healthy controls (HCs). Microbial and metabolic data were cross-correlated to find meaningful associations after extensive data mining analysis and internal validation...
May 11, 2018: Annals of the New York Academy of Sciences
https://www.readbyqxmd.com/read/29743935/pharmacokinetics-of-chinese-medicines-strategies-and-perspectives
#9
REVIEW
Ru Yan, Ying Yang, Yijia Chen
The modernization and internationalization of Chinese medicines (CMs) are hampered by increasing concerns on the safety and the efficacy. Pharmacokinetic (PK) study is indispensable to establish concentration-activity/toxicity relationship and facilitate target identification and new drug discovery from CMs. To cope with tremendous challenges rooted from chemical complexity of CMs, the classic PK strategies have evolved rapidly from PK study focusing on marker/main drug components to PK-PD correlation study adopting metabolomics approaches to characterize associations between disposition of global drug-related components and host metabolic network shifts...
2018: Chinese Medicine
https://www.readbyqxmd.com/read/29739823/butyrate-suppresses-the-proliferation-of-colorectal-cancer-cells-via-targeting-pyruvate-kinase-m2-and-metabolic-reprogramming
#10
Qingran Li, Lijuan Cao, Yang Tian, Pei Zhang, Chujie Ding, Wenjie Lu, Chenxi Jia, Chang Shao, Wenyue Liu, Dong Wang, Hui Ye, Haiping Hao
Butyrate is a short chain fatty acid present in a high concentration in the gut lumen. It has been well documented that butyrate, by serving as an energetic metabolite, promotes the proliferation of normal colonocytes while, by serving as a histone deacetylase inhibitor, epigenetically suppressing the proliferation of cancerous counterparts undergoing the Warburg effect. However, how butyrate interrupts the metabolism of colorectal cancer cells and ultimately leads to the suppression of cell proliferation remains unclear...
May 8, 2018: Molecular & Cellular Proteomics: MCP
https://www.readbyqxmd.com/read/29731746/response-of-gut-microbiota-to-metabolite-changes-induced-by-endurance-exercise
#11
Xia Zhao, Zhujun Zhang, Bin Hu, Wei Huang, Chao Yuan, Lingyun Zou
A few animal studies have shown that wheel running could reverse an unhealthy status by shifting the gut microbial composition, but no investigations have studied the effect of endurance running, such as marathon running, on human gut microbial communities. Since many findings have shown that marathon running immediately causes metabolic changes in blood, urine, muscles and lymph that potentially impact the gut microbiota (GM) within several hours. Here, we investigated whether the GM immediately responds to the enteric changes in amateur half-marathon runners...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29728388/fecal-microbiota-transplantation-in-experimental-ulcerative-colitis-reveals-associated-gut-microbial-and-host-metabolic-reprogramming
#12
Zhixiang Yan, Xue-Jiao Gao, Ting Li, Bin Wei, Panpan Wang, Ying Yang, Ru Yan
Fecal microbiota transplantation (FMT) is gaining attention for the treatment of ulcerative colitis (UC). Data from individual case studies have suggested that FMT may be beneficial for UC but the detailed microbial and molecular basis remains unknown. Here, we employ 16S rRNA gene sequencing and metabolomics to investigate the influence of FMT on gut microbial community composition and host metabolism in the dextran sulfate sodium (DSS) induced UC rat model. The findings from this pilot study suggest that FMT from normal donors to UC recipients could alleviate UC symptoms without close resemblance of donor's gut microbial and metabolic pattern...
May 4, 2018: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/29719871/a-prospective-metagenomic-and-metabolomic-analysis-of-the-impact-of-exercise-and-or-whey-protein-supplementation-on-the-gut-microbiome-of-sedentary-adults
#13
Owen Cronin, Wiley Barton, Peter Skuse, Nicholas C Penney, Isabel Garcia-Perez, Eileen F Murphy, Trevor Woods, Helena Nugent, Aine Fanning, Silvia Melgar, Eanna C Falvey, Elaine Holmes, Paul D Cotter, Orla O'Sullivan, Michael G Molloy, Fergus Shanahan
Many components of modern living exert influence on the resident intestinal microbiota of humans with resultant impact on host health. For example, exercise-associated changes in the diversity, composition, and functional profiles of microbial populations in the gut have been described in cross-sectional studies of habitual athletes. However, this relationship is also affected by changes in diet, such as changes in dietary and supplementary protein consumption, that coincide with exercise. To determine whether increasing physical activity and/or increased protein intake modulates gut microbial composition and function, we prospectively challenged healthy but sedentary adults with a short-term exercise regime, with and without concurrent daily whey protein consumption...
May 2018: MSystems
https://www.readbyqxmd.com/read/29715508/gut-metabolome-meets-microbiome-a-methodological-perspective-to-understand-the-relationship-between-host-and-microbe
#14
REVIEW
Santosh Lamichhane, Partho Sen, Alex M Dickens, Matej Orešič, Hanne Christine Bertram
It is well established that gut microbes and their metabolic products regulate host metabolism. The interactions between the host and its gut microbiota are highly dynamic and complex. In this review we present and discuss the metabolomic strategies to study the gut microbial ecosystem. We highlight the metabolic profiling approaches to study faecal samples aimed at deciphering the metabolic product derived from gut microbiota. We also discuss how metabolomics data can be integrated with metagenomics data derived from gut microbiota and how such approaches may lead to better understanding of the microbial functions...
April 28, 2018: Methods: a Companion to Methods in Enzymology
https://www.readbyqxmd.com/read/29713650/application-of-metabolomics-to-study-effects-of-bariatric-surgery
#15
REVIEW
Paulina Samczuk, Michal Ciborowski, Adam Kretowski
Bariatric surgery was born in the 1950s at the University of Minnesota. From this time, it continues to evolve and, by the same token, gives new or better possibilities to treat not only obesity but also associated comorbidities. Metabolomics is also a relatively young science discipline, and similarly, it shows great potential for the comprehensive study of the dynamic alterations of the metabolome. It has been widely used in medicine, biology studies, biomarker discovery, and prognostic evaluations. Currently, several dozen metabolomics studies were performed to study the effects of bariatric surgery...
2018: Journal of Diabetes Research
https://www.readbyqxmd.com/read/29707039/emerging-concepts-in-non-invasive-monitoring-of-crohn-s-disease
#16
REVIEW
Wojciech Marlicz, Karolina Skonieczna-Żydecka, Konstantinos John Dabos, Igor Łoniewski, Anastasios Koulaouzidis
Inflammatory bowel disease (IBD) is an umbrella term for Crohn's disease (CD) and ulcerative colitis (UC). In light of evolving epidemiology of CD, its clinical management is still complex and remains a challenge for contemporary physicians. With the advent of new diagnostic and treatment paradigms, there is a growing need for new biomarkers to guide decision-making, differential diagnosis, disease activity monitoring, as well as prognosis. However, both clinical and endoscopic scoring systems, widely utilized for disease monitoring and prognosis, have drawbacks and limitations...
2018: Therapeutic Advances in Gastroenterology
https://www.readbyqxmd.com/read/29700349/integrative-metabolic-and-microbial-profiling-on-patients-with-spleen-yang-deficiency-syndrome
#17
Zhang Lin, Wu Ye, Xianpeng Zu, Haisheng Xie, Houkai Li, Yiping Li, Weidong Zhang
Gut microbiota is recognized as an indispensable "metabolic organ" that plays crucial roles in maintaining human health or initiating diseases. Spleen-yang-deficiency syndrome (SYDS) is a common syndrome of Traditional Chinese Medicine (TCM) clinic. It is a complex phenotype reflecting the overall changes of metabolism which are mainly caused by digestive disorders. However, little is known about the changes of gut microbiota and metabolism in patients with SYDS, as well as the crosstalk between gut microbiota and host metabolism...
April 26, 2018: Scientific Reports
https://www.readbyqxmd.com/read/29686603/indole-a-signaling-molecule-produced-by-the-gut-microbiota-negatively-impacts-emotional-behaviors-in-rats
#18
Mathilde Jaglin, Moez Rhimi, Catherine Philippe, Nicolas Pons, Aurélia Bruneau, Bénédicte Goustard, Valérie Daugé, Emmanuelle Maguin, Laurent Naudon, Sylvie Rabot
Gut microbiota produces a wide and diverse array of metabolites that are an integral part of the host metabolome. The emergence of the gut microbiome-brain axis concept has prompted investigations on the role of gut microbiota dysbioses in the pathophysiology of brain diseases. Specifically, the search for microbe-related metabolomic signatures in human patients and animal models of psychiatric disorders has pointed out the importance of the microbial metabolism of aromatic amino acids. Here, we investigated the effect of indole on brain and behavior in rats...
2018: Frontiers in Neuroscience
https://www.readbyqxmd.com/read/29679417/a-probiotic-modulates-the-microbiome-and-immunity-in-multiple-sclerosis
#19
Stephanie K Tankou, Keren Regev, Brian C Healy, Emily Tjon, Luca Laghi, Laura M Cox, Pia Kivisäkk, Isabelle V Pierre, Hrishikesh Lokhande, Roopali Gandhi, Sandra Cook, Bonnie Glanz, James Stankiewicz, Howard L Weiner
OBJECTIVE: Effect of a probiotic on the gut microbiome and peripheral immune function in healthy controls and relapsing-remitting multiple sclerosis (RRMS) patients. METHODS: MS patients (N=9) and controls (N=13) were orally administered a probiotic containing Lactobacillus, Bifidobacterium and Streptococcus twice daily for two months. Blood and stool specimens were collected at baseline, after completion of the 2-month treatment, and 3 months after discontinuation of therapy...
April 20, 2018: Annals of Neurology
https://www.readbyqxmd.com/read/29678198/metabolic-retroconversion-of-trimethylamine-n-oxide-and-the-gut-microbiota
#20
Lesley Hoyles, Maria L Jiménez-Pranteda, Julien Chilloux, Francois Brial, Antonis Myridakis, Thomas Aranias, Christophe Magnan, Glenn R Gibson, Jeremy D Sanderson, Jeremy K Nicholson, Dominique Gauguier, Anne L McCartney, Marc-Emmanuel Dumas
BACKGROUND: The dietary methylamines choline, carnitine, and phosphatidylcholine are used by the gut microbiota to produce a range of metabolites, including trimethylamine (TMA). However, little is known about the use of trimethylamine N-oxide (TMAO) by this consortium of microbes. RESULTS: A feeding study using deuterated TMAO in C57BL6/J mice demonstrated microbial conversion of TMAO to TMA, with uptake of TMA into the bloodstream and its conversion to TMAO. Microbial activity necessary to convert TMAO to TMA was suppressed in antibiotic-treated mice, with deuterated TMAO being taken up directly into the bloodstream...
April 20, 2018: Microbiome
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